Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 269 of 295
Found at i:85958078 original size:11 final size:11
Alignment explanation
Indices: 85958062--85958129 Score: 73
Period size: 11 Copynumber: 6.0 Consensus size: 11
85958052 TCATTTCTAA
*
85958062 TATGTATATGT
1 TATGTATATAT
85958073 TATGTATATAT
1 TATGTATATAT
* *
85958084 TTTAATACTATAT
1 TAT-GTA-TATAT
85958097 TATGTATATAT
1 TATGTATATAT
* *
85958108 TTTATATATAT
1 TATGTATATAT
85958119 TATGTATATAT
1 TATGTATATAT
85958130 ATTTTTAATA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 35 0.76
12 4 0.09
13 7 0.15
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.56
Consensus pattern (11 bp):
TATGTATATAT
Found at i:85958100 original size:24 final size:22
Alignment explanation
Indices: 85958066--85958171 Score: 107
Period size: 22 Copynumber: 5.0 Consensus size: 22
85958056 TTCTAATATG
*
85958066 TATATGTTATGTATATATTTTAA
1 TATATATTATGTATATATTTT-A
85958089 TACTATATTATGTATATATTTTA
1 TA-TATATTATGTATATATTTTA
85958112 TATATATTATGTATATATATTT-
1 TATATATTATGTATATAT-TTTA
* *
85958134 T-TA-A-TA-ATAT-TTTTTTA
1 TATATATTATGTATATATTTTA
*
85958151 TATATGTTATGTATATATTTT
1 TATATATTATGTATATATTTT
85958172 TAATATCACA
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
16 3 0.04
17 3 0.04
18 5 0.07
19 2 0.03
20 3 0.04
21 5 0.07
22 22 0.32
23 8 0.12
24 18 0.26
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (22 bp):
TATATATTATGTATATATTTTA
Found at i:85958112 original size:13 final size:13
Alignment explanation
Indices: 85958066--85958171 Score: 70
Period size: 13 Copynumber: 8.6 Consensus size: 13
85958056 TTCTAATATG
*
85958066 TATATGTTATGTA
1 TATATTTTATGTA
85958079 TATATTTTA---A
1 TATATTTTATGTA
*
85958089 TACTATATTATGTA
1 TA-TATTTTATGTA
85958103 TATATTTTA--TA
1 TATATTTTATGTA
85958114 TATA--TTATGTA
1 TATATTTTATGTA
85958125 TATATATTT-T-TAA
1 TATAT-TTTATGT-A
*
85958138 TAATATTTT-TTTA
1 T-ATATTTTATGTA
*
85958151 TATATGTTATGTA
1 TATATTTTATGTA
85958164 TATATTTT
1 TATATTTT
85958172 TAATATCACA
Statistics
Matches: 74, Mismatches: 6, Indels: 26
0.70 0.06 0.25
Matches are distributed among these distances:
9 3 0.04
10 3 0.04
11 18 0.24
12 7 0.09
13 33 0.45
14 10 0.14
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (13 bp):
TATATTTTATGTA
Found at i:85958118 original size:48 final size:48
Alignment explanation
Indices: 85958066--85958276 Score: 139
Period size: 50 Copynumber: 4.6 Consensus size: 48
85958056 TTCTAATATG
85958066 TATATGTTATGTATATA-TTTTAATACTATATTATGTATATA--TTTTA
1 TATATGTTATGTATATACTTTTAATACTATATTAT-TATATATTTTTTA
*
85958112 TATATATTATGTATATA-TATTT--T--TA-A-TA--ATAT-TTTTTTA
1 TATATGTTATGTATATACT-TTTAATACTATATTATTATATATTTTTTA
* * *
85958151 TATATGTTATGTATATATTTTTAATA-TCACATTATTCATACATTTTTTA
1 TATATGTTATGTATATACTTTTAATACT-ATATTATT-ATATATTTTTTA
*** * * * *
85958200 TATTATCCCATGTAAATACTTTCAATACTATATTATGCATATATTTTTGTC
1 TA-TATGTTATGTATATACTTTTAATACTATATTAT-TATATATTTTT-TA
*
85958251 TATA--TTATATATATACTTTTAATACT
1 TATATGTTATGTATATACTTTTAATACT
85958277 CAACACTATT
Statistics
Matches: 129, Mismatches: 18, Indels: 34
0.71 0.10 0.19
Matches are distributed among these distances:
38 4 0.03
39 24 0.19
40 1 0.01
41 3 0.02
42 2 0.02
43 3 0.02
44 1 0.01
45 3 0.02
46 17 0.13
47 3 0.02
48 20 0.16
49 9 0.07
50 35 0.27
51 4 0.03
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (48 bp):
TATATGTTATGTATATACTTTTAATACTATATTATTATATATTTTTTA
Found at i:85958153 original size:37 final size:37
Alignment explanation
Indices: 85958102--85958176 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
85958092 TATATTATGT
85958102 ATATATTTTATATATA-TTATGTATATATATTTTTAATA
1 ATATATTTTATATATAGTTATG--TATATATTTTTAATA
*
85958140 ATAT-TTTTTTATATATGTTATGTATATATTTTTAATA
1 ATATATTTTATATATA-GTTATGTATATATTTTTAATA
85958177 TCACATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
37 25 0.74
38 4 0.12
39 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (37 bp):
ATATATTTTATATATAGTTATGTATATATTTTTAATA
Found at i:85958264 original size:23 final size:23
Alignment explanation
Indices: 85958227--85958270 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
85958217 ACTTTCAATA
* *
85958227 CTATATTATGCATATATTTTTGT
1 CTATATTATACATATACTTTTGT
*
85958250 CTATATTATATATATACTTTT
1 CTATATTATACATATACTTTT
85958271 AATACTCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.57
Consensus pattern (23 bp):
CTATATTATACATATACTTTTGT
Found at i:85958586 original size:34 final size:34
Alignment explanation
Indices: 85958511--85958587 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
85958501 TTGTTTTCAA
* * *
85958511 TATATATTGTATATATATATATTTAATCTAGTAT
1 TATATGTTTTATATATATATATTTAATCTACTAT
*
85958545 TATATGTTTTATATATATATATGTTCA-CTACTAT
1 TATATGTTTTATATATATATAT-TTAATCTACTAT
85958579 T-TCATGTTT
1 TAT-ATGTTT
85958588 ACATTATTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 1 0.03
34 33 0.89
35 3 0.08
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (34 bp):
TATATGTTTTATATATATATATTTAATCTACTAT
Found at i:85961157 original size:22 final size:23
Alignment explanation
Indices: 85961129--85961171 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
85961119 TATTATAATG
85961129 TGAACAT-TAAAAAATGTTAAGA
1 TGAACATATAAAAAATGTTAAGA
* *
85961151 TGAACATATATAAAATTTTAA
1 TGAACATATAAAAAATGTTAA
85961172 TAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (23 bp):
TGAACATATAAAAAATGTTAAGA
Found at i:85961234 original size:31 final size:31
Alignment explanation
Indices: 85961166--85961249 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 31
85961156 ATATATAAAA
*
85961166 TTTTAATAAA-TAAAAAT-ATATATAATTAT
1 TTTTATTAAATTAAAAATAATATATAATTAT
**
85961195 TAAATATTAAATTAAAAATAATATA-AATATAT
1 T-TTTATTAAATTAAAAATAATATATAAT-TAT
** *
85961227 TTTTATTATTTTTAAAATAATAT
1 TTTTATTAAATTAAAAATAATAT
85961250 CAACAGACCT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
29 1 0.02
30 6 0.14
31 27 0.63
32 9 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
TTTTATTAAATTAAAAATAATATATAATTAT
Found at i:85965993 original size:46 final size:46
Alignment explanation
Indices: 85965941--85966032 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
85965931 TGTACCATGT
85965941 TCTTGAGCTTGTGTCAACTCGTAGAGAGCCTTATTTAACAAATAAA
1 TCTTGAGCTTGTGTCAACTCGTAGAGAGCCTTATTTAACAAATAAA
*
85965987 TCTTGAGCTTGTTTCAACTCGTAGAGAGCCTTATTTAACAAATAAA
1 TCTTGAGCTTGTGTCAACTCGTAGAGAGCCTTATTTAACAAATAAA
85966033 CTTTTTCCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (46 bp):
TCTTGAGCTTGTGTCAACTCGTAGAGAGCCTTATTTAACAAATAAA
Found at i:85975508 original size:26 final size:25
Alignment explanation
Indices: 85975471--85975575 Score: 183
Period size: 25 Copynumber: 4.2 Consensus size: 25
85975461 CCTCAAATCA
*
85975471 TTTTTCCCAAATCTCTAACTTAGTT
1 TTTTTCCCAAATCCCTAACTTAGTT
85975496 TTTTTCCCTAAATCCCTAACTTAGTT
1 TTTTTCCC-AAATCCCTAACTTAGTT
*
85975522 TTTTTCCTAAATCCCTAACTTAGTT
1 TTTTTCCCAAATCCCTAACTTAGTT
85975547 TTTTTCCCAAATCCCTAACTTAGTT
1 TTTTTCCCAAATCCCTAACTTAGTT
85975572 TTTT
1 TTTT
85975576 CTTTCCCATC
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 53 0.70
26 23 0.30
ACGTcount: A:0.23, C:0.25, G:0.04, T:0.49
Consensus pattern (25 bp):
TTTTTCCCAAATCCCTAACTTAGTT
Found at i:85975534 original size:51 final size:50
Alignment explanation
Indices: 85975471--85975575 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 50
85975461 CCTCAAATCA
*
85975471 TTTTTCCCAAATCTCTAACTTAGTTTTTTTCCCTAAATCCCTAACTTAGTT
1 TTTTTCCCAAATCCCTAACTTAGTTTTTTTCCC-AAATCCCTAACTTAGTT
*
85975522 TTTTTCCTAAATCCCTAACTTAGTTTTTTTCCCAAATCCCTAACTTAGTT
1 TTTTTCCCAAATCCCTAACTTAGTTTTTTTCCCAAATCCCTAACTTAGTT
85975572 TTTT
1 TTTT
85975576 CTTTCCCATC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
50 21 0.40
51 31 0.60
ACGTcount: A:0.23, C:0.25, G:0.04, T:0.49
Consensus pattern (50 bp):
TTTTTCCCAAATCCCTAACTTAGTTTTTTTCCCAAATCCCTAACTTAGTT
Found at i:85976365 original size:36 final size:36
Alignment explanation
Indices: 85976318--85976389 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
85976308 ATATTGTGTT
85976318 TGTATTTGGGAAAGAGACACAGAGGCAAAGACTTAA
1 TGTATTTGGGAAAGAGACACAGAGGCAAAGACTTAA
*
85976354 TGTATTTGGGAAAGAGACACAGAGGCAGAGACTTAA
1 TGTATTTGGGAAAGAGACACAGAGGCAAAGACTTAA
85976390 AGACAACTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.19
Consensus pattern (36 bp):
TGTATTTGGGAAAGAGACACAGAGGCAAAGACTTAA
Found at i:85978415 original size:66 final size:67
Alignment explanation
Indices: 85978320--85978522 Score: 252
Period size: 66 Copynumber: 3.1 Consensus size: 67
85978310 CAAATTGCTT
* * * *
85978320 AACTTAAAGCGGAGGTAGCATTGAAAGAAATAGAGGCTAAAAAGAAAATATGCTGAACTCCATCT
1 AACTTAAAGCGGAGGTAGCATCGAGAGAAACAGAGGCTAAAAAGAAAATATGCTGAACTCCAGCT
85978385 AC
66 AC
* * **
85978387 AACTT-AAGCGGATGTAGCATCGAGAGAAACAGAGGCT-AAAAGAAAATATGATGAACTTTAGCT
1 AACTTAAAGCGGAGGTAGCATCGAGAGAAACAGAGGCTAAAAAGAAAATATGCTGAACTCCAGCT
85978450 AC
66 AC
* * * * *
85978452 AACTTAAAGCGGAGGTAGCAGCGAGGGAAGCAGAAGC-AACAAGAAAATATGAC-GAACTCCAGC
1 AACTTAAAGCGGAGGTAGCATCGAGAGAAACAGAGGCTAAAAAGAAAATATG-CTGAACTCCAGC
85978515 TAC
65 TAC
85978518 AACTT
1 AACTT
85978523 CAAAATATGA
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
65 29 0.25
66 82 0.71
67 5 0.04
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.17
Consensus pattern (67 bp):
AACTTAAAGCGGAGGTAGCATCGAGAGAAACAGAGGCTAAAAAGAAAATATGCTGAACTCCAGCT
AC
Found at i:85984712 original size:4 final size:4
Alignment explanation
Indices: 85984705--85984729 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
85984695 TATATATATA
85984705 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
85984730 CGCTTAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:85984959 original size:16 final size:17
Alignment explanation
Indices: 85984927--85984959 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
85984917 TGTCAAAAAA
*
85984927 AAAATTAAAAAATTTAT
1 AAAATTAAAAAAGTTAT
85984944 AAAATT-AAAAAGTTAT
1 AAAATTAAAAAAGTTAT
85984960 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAATTAAAAAAGTTAT
Found at i:85986556 original size:3 final size:3
Alignment explanation
Indices: 85986548--85987020 Score: 111
Period size: 3 Copynumber: 158.0 Consensus size: 3
85986538 AACGATATGG
* * * * **
85986548 TAA TAA TAA TAG TAA TAGA GAA CAA CAA TACA TTAA TAA TAA TATA TGT
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A -TAA TAA TAA TA-A TAA
* * * * *
85986597 TAA TAA CAA TAA TAA TAA TATG TAA -AA AAA GGGAA TAA TAA T-A TAG
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA --TAA TAA TAA TAA TAA
* * ** * * * *
85986643 TAA AAA TGA TAA TAA T-A TGT TAA TAA GAA TAA TAG TAG TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
85986690 TAA AAA GGTAA TAG TAA TAA AAA TAA AAA TAA AAA TAA AAA TAA TAG
1 TAA TAA --TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
85986737 TAA TAA TGA TAA TAA TAA TAA TAG TAA TAA -AA CAGA GAGA AAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA
* * * * * *
85986783 GAA -AA -AA AACA TAA CAA TAA -AA GTAA TAA TTA TTA TTA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
* * * **
85986827 TAA T-A TAA -AA TTAA TGA T-A TAA TAA T-G TAA TAA TAA TAG GCA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * **
85986869 -AA TAA GT-A TAA AAA GAA -AA T-A TAA TCA TAG TAA TAA TAG TTG
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
85986911 TAG TAA TAA TAA TAA TAG TAA GAA TAA TAA TGA TAA T-A TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
85986958 TAG TAA T-A TAA TAG TAA TAG TAA TGA TAA TAA -ATA TAA GTAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -TAA TAA
85987003 TAA -AA TAA TAA TAGA TAA
1 TAA TAA TAA TAA TA-A TAA
85987021 ACTAATTAAT
Statistics
Matches: 345, Mismatches: 90, Indels: 70
0.68 0.18 0.14
Matches are distributed among these distances:
2 34 0.10
3 278 0.81
4 27 0.08
5 6 0.02
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:85986674 original size:20 final size:21
Alignment explanation
Indices: 85986607--85986686 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 21
85986597 TAATAACAAT
*
85986607 AATAATAATAT-GTAAAAAAAGGG
1 AATAATAATATAGT--AAAAA-TG
85986630 AATAATAATATAGTAAAAATG
1 AATAATAATATAGTAAAAATG
*
85986651 -ATAATAATAT-GTTAATAA-G
1 AATAATAATATAG-TAAAAATG
*
85986670 AATAATAGTAGTAGTAA
1 AATAATAATA-TAGTAA
85986687 TAATAAAAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
19 2 0.04
20 23 0.47
21 5 0.10
22 6 0.12
23 11 0.22
24 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (21 bp):
AATAATAATATAGTAAAAATG
Found at i:85986958 original size:17 final size:17
Alignment explanation
Indices: 85986915--85987012 Score: 65
Period size: 17 Copynumber: 5.4 Consensus size: 17
85986905 TAGTTGTAGT
* *
85986915 AATAATAATAATAGTAAG
1 AATAATAGTAATA-TAAC
85986933 AATAATAATGATAATATAAC
1 AATAAT-A-G-TAATATAAC
*
85986953 AATAATAGTAATATAAT
1 AATAATAGTAATATAAC
* *
85986970 AGTAATAGTAATGATAAT
1 AATAATAGTAAT-ATAAC
85986988 AA-ATATAAGTAATAGTAA-
1 AATA-AT-AGTAATA-TAAC
85987006 AATAATA
1 AATAATA
85987013 ATAGATAAAC
Statistics
Matches: 67, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
17 21 0.31
18 20 0.30
19 12 0.18
20 9 0.13
21 5 0.07
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.31
Consensus pattern (17 bp):
AATAATAGTAATATAAC
Found at i:85993521 original size:24 final size:24
Alignment explanation
Indices: 85993488--85993537 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
85993478 GTGAGACTCT
*
85993488 ACCAGGTAACTTGATTTCAAATTA
1 ACCAGATAACTTGATTTCAAATTA
85993512 ACCAGATAACTTGATTTCAAATTA
1 ACCAGATAACTTGATTTCAAATTA
85993536 AC
1 AC
85993538 TTTTCCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (24 bp):
ACCAGATAACTTGATTTCAAATTA
Found at i:85999039 original size:18 final size:18
Alignment explanation
Indices: 85999016--85999108 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
85999006 CCCAACTACT
*
85999016 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
85999034 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
85999052 GTACACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
85999070 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
85999088 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
85999106 GTA
1 GTA
85999109 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:86004063 original size:16 final size:16
Alignment explanation
Indices: 86004044--86004102 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
86004034 GGGTTTGTAA
86004044 TTTTTTAGGTTTGATTT
1 TTTTTTAGGTTTGA-TT
86004061 TTTTTTA--TTTGGATT
1 TTTTTTAGGTTT-GATT
* ** *
86004076 CTTTTTAAATTCGATT
1 TTTTTTAGGTTTGATT
86004092 TTTTTTAGGTT
1 TTTTTTAGGTT
86004103 GTGCTCTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 11 0.32
16 14 0.41
17 9 0.26
ACGTcount: A:0.15, C:0.03, G:0.14, T:0.68
Consensus pattern (16 bp):
TTTTTTAGGTTTGATT
Found at i:86004064 original size:15 final size:16
Alignment explanation
Indices: 86004025--86004056 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
86004015 TTTTAATTTT
*
86004025 TAATTTTTTGGGTTTG
1 TAATTTTTTAGGTTTG
86004041 TAATTTTTTAGGTTTG
1 TAATTTTTTAGGTTTG
86004057 ATTTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (16 bp):
TAATTTTTTAGGTTTG
Found at i:86006360 original size:53 final size:47
Alignment explanation
Indices: 86006248--86006351 Score: 156
Period size: 47 Copynumber: 2.2 Consensus size: 47
86006238 GTGTCCAAAG
* *
86006248 AATT-TTTTTTTTTTGGTCATGCCATTGATGTTGGTTACACCCATTT
1 AATTGTTTTTTTTTTGGTCATGCCATTGATATTGGCTACACCCATTT
* *
86006294 AATTGTTTTTTTTTTGGTCTTGCCATTGATATTGGCTGCACCCATTT
1 AATTGTTTTTTTTTTGGTCATGCCATTGATATTGGCTACACCCATTT
*
86006341 AATTGTGTTTT
1 AATTGTTTTTT
86006352 GAATTTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
46 4 0.08
47 48 0.92
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.53
Consensus pattern (47 bp):
AATTGTTTTTTTTTTGGTCATGCCATTGATATTGGCTACACCCATTT
Found at i:86008898 original size:30 final size:30
Alignment explanation
Indices: 86008862--86008961 Score: 91
Period size: 30 Copynumber: 3.3 Consensus size: 30
86008852 CATCTAGTTG
86008862 GAGCTTTGCAATTTTGTCACGTTATATTGA
1 GAGCTTTGCAATTTTGTCACGTTATATTGA
* * *
86008892 GAGCTTTGTCGCA--CTG-CTCGTTCATCTAGTTG-
1 GAGCTTTG-C-AATTTTGTCACGTT-A--TA-TTGA
86008924 GAGCTTTGCAATTTTGTCACGTTATATTGA
1 GAGCTTTGCAATTTTGTCACGTTATATTGA
86008954 GAGCTTTG
1 GAGCTTTG
86008962 TCGTGCGACA
Statistics
Matches: 54, Mismatches: 6, Indels: 20
0.68 0.08 0.25
Matches are distributed among these distances:
29 8 0.15
30 22 0.41
31 2 0.04
32 14 0.26
33 8 0.15
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (30 bp):
GAGCTTTGCAATTTTGTCACGTTATATTGA
Found at i:86008941 original size:62 final size:62
Alignment explanation
Indices: 86008844--86008964 Score: 242
Period size: 62 Copynumber: 2.0 Consensus size: 62
86008834 ATTTGGAGGT
86008844 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCGCAC
1 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCGCAC
86008906 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCG
1 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCG
86008965 TGCGACAAAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.41
Consensus pattern (62 bp):
TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCGCAC
Found at i:86021374 original size:21 final size:22
Alignment explanation
Indices: 86021350--86021394 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
86021340 TAATAATAAC
86021350 AATAACAATAACAACG-TAGAA
1 AATAACAATAACAACGTTAGAA
* *
86021371 AATAATAATAACAATGTTAGAA
1 AATAACAATAACAACGTTAGAA
86021393 AA
1 AA
86021395 CAATTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.20
Consensus pattern (22 bp):
AATAACAATAACAACGTTAGAA
Found at i:86021380 original size:3 final size:3
Alignment explanation
Indices: 86021311--86021360 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
86021301 TGAAAATGAC
* *
86021311 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
86021359 AA
1 AA
86021361 CAACGTAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:86021609 original size:24 final size:24
Alignment explanation
Indices: 86021560--86021612 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
86021550 TAATACTAAT
* * *
86021560 AATAAATACAATAATAGTCGTAAA
1 AATAAACACAATAATAATCATAAA
*
86021584 AATAAACACAATAATAATCATGAA
1 AATAAACACAATAATAATCATAAA
86021608 AATAA
1 AATAA
86021613 TGTGTACATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.23
Consensus pattern (24 bp):
AATAAACACAATAATAATCATAAA
Found at i:86022472 original size:11 final size:12
Alignment explanation
Indices: 86022451--86022484 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
86022441 TTCGAATAAT
*
86022451 AAAATAAAAAAG
1 AAAAGAAAAAAG
86022463 AAAA-AAAAAAG
1 AAAAGAAAAAAG
86022474 AAAAGAAAAAA
1 AAAAGAAAAAA
86022485 CCTTAAGCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:86036159 original size:30 final size:30
Alignment explanation
Indices: 86036123--86036222 Score: 91
Period size: 30 Copynumber: 3.3 Consensus size: 30
86036113 CATCTAGTTG
86036123 GAGCTTTGCAATTTTGTCACGTTATATTGA
1 GAGCTTTGCAATTTTGTCACGTTATATTGA
* * *
86036153 GAGCTTTGTCGCA--CTG-CTCGTTCATCTAGTTG-
1 GAGCTTTG-C-AATTTTGTCACGTT-A--TA-TTGA
86036185 GAGCTTTGCAATTTTGTCACGTTATATTGA
1 GAGCTTTGCAATTTTGTCACGTTATATTGA
86036215 GAGCTTTG
1 GAGCTTTG
86036223 TCGTGCGACA
Statistics
Matches: 54, Mismatches: 6, Indels: 20
0.68 0.08 0.25
Matches are distributed among these distances:
29 8 0.15
30 22 0.41
31 2 0.04
32 14 0.26
33 8 0.15
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (30 bp):
GAGCTTTGCAATTTTGTCACGTTATATTGA
Found at i:86036202 original size:62 final size:62
Alignment explanation
Indices: 86036105--86036225 Score: 242
Period size: 62 Copynumber: 2.0 Consensus size: 62
86036095 ATTTGGAGGT
86036105 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCGCAC
1 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCGCAC
86036167 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCG
1 TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCG
86036226 TGCGACAAAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.41
Consensus pattern (62 bp):
TGCTCGTTCATCTAGTTGGAGCTTTGCAATTTTGTCACGTTATATTGAGAGCTTTGTCGCAC
Found at i:86048689 original size:29 final size:29
Alignment explanation
Indices: 86048630--86048691 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
86048620 TGACAATGAT
*
86048630 AATAATAATAATAATAATATAACGTAGAA
1 AATAATAATAATAATAATATAACGTAAAA
* **
86048659 AATAATGATAATAAT-ATATGAATTTAAAA
1 AATAATAATAATAATAATAT-AACGTAAAA
86048688 AATA
1 AATA
86048692 TACATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (29 bp):
AATAATAATAATAATAATATAACGTAAAA
Found at i:86048871 original size:23 final size:23
Alignment explanation
Indices: 86048852--86048897 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
86048842 GTGATATTAA
86048852 AAATATATACATAAAAATATAAT
1 AAATATATACATAAAAATATAAT
* *
86048875 AGATATATATATAATATAATATA
1 AAATATATACATAA-A-AATATA
86048898 TACATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 1 0.05
25 6 0.32
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
AAATATATACATAAAAATATAAT
Found at i:86048898 original size:16 final size:16
Alignment explanation
Indices: 86048868--86048908 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
86048858 ATACATAAAA
*
86048868 ATATAATA-GATATAT
1 ATATAATATAATATAT
86048883 ATATAATATAATATAT
1 ATATAATATAATATAT
*
86048899 ACATAATATA
1 ATATAATATA
86048909 GTATTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
ATATAATATAATATAT
Found at i:86048922 original size:39 final size:39
Alignment explanation
Indices: 86048853--86048929 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
86048843 TGATATTAAA
* *
86048853 AATATATACATAAAAATATAATAGATATATATATAATAT
1 AATATATACATAAAAATATAATAAAAATATATATAATAT
* *
86048892 AATATATACAT-AATATAGTATTAAAAATATATATAATA
1 AATATATACATAAAAATA-TAATAAAAATATATATAATA
86048930 CATACACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 5 0.15
39 28 0.85
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (39 bp):
AATATATACATAAAAATATAATAAAAATATATATAATAT
Found at i:86049280 original size:25 final size:24
Alignment explanation
Indices: 86049235--86049297 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
86049225 ACGATACAAT
*
86049235 ATAATAATAATGTAAAGAAAATAAA
1 ATAATAAT-ATGTAAAGAAAAGAAA
* *
86049260 ATAATAATATTTATAATAAAAGAAA
1 ATAATAATATGTA-AAGAAAAGAAA
86049285 ATAA-AATAGTGTA
1 ATAATAATA-TGTA
86049298 TTTAAAAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 8 0.25
25 24 0.75
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (24 bp):
ATAATAATATGTAAAGAAAAGAAA
Found at i:86053528 original size:24 final size:23
Alignment explanation
Indices: 86053501--86053545 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
86053491 TTAGTTATAC
*
86053501 TTAATTATTGGTTTTGTTAATTTG
1 TTAATTATTAG-TTTGTTAATTTG
86053525 TTAATTATTAGTTTGTTAATT
1 TTAATTATTAGTTTGTTAATT
86053546 GGTATTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTAATTATTAGTTTGTTAATTTG
Found at i:86053556 original size:23 final size:23
Alignment explanation
Indices: 86053502--86053549 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
86053492 TAGTTATACT
* *
86053502 TAATTATTGGTTTTGTTAATTTGT
1 TAATTATTAG-TTTGTTAATTTGG
86053526 TAATTATTAGTTTGTTAA-TTGG
1 TAATTATTAGTTTGTTAATTTGG
86053548 TA
1 TA
86053550 TTGTATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 8 0.36
24 9 0.41
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.58
Consensus pattern (23 bp):
TAATTATTAGTTTGTTAATTTGG
Found at i:86053869 original size:127 final size:127
Alignment explanation
Indices: 86053715--86054032 Score: 474
Period size: 127 Copynumber: 2.5 Consensus size: 127
86053705 TGAAAATTCC
* ** *
86053715 TTAAAACAAATGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTC
1 TTAAAAC-AAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTC
** *
86053780 GATTTCCCGTTTGTTCAAAATAATTGAATACTCCTTTAGAATTTCACTCATGTTTCCCAAATT
65 GATTTCCCGTTTGTTCAAAATAATCAAATACTCCTTTAGAATTTCACTCATATTTCCCAAATT
86053843 TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
1 TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
* * * * * *
86053908 ATTTCCTGTTTGTTCAAAATAATCAAATATTCCTTTTGAATTTCACTCGTATTTTCTAAATT
66 ATTTCCCGTTTGTTCAAAATAATCAAATACTCCTTTAGAATTTCACTCATATTTCCCAAATT
* * * *
86053970 CTAAAGCAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATTGTGCCCTACCGTGCTGGGTTT
1 TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTT
86054033 GGGTTTTTCG
Statistics
Matches: 173, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
127 166 0.96
128 7 0.04
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (127 bp):
TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
ATTTCCCGTTTGTTCAAAATAATCAAATACTCCTTTAGAATTTCACTCATATTTCCCAAATT
Found at i:86054079 original size:127 final size:124
Alignment explanation
Indices: 86053716--86054076 Score: 395
Period size: 127 Copynumber: 2.8 Consensus size: 124
86053706 GAAAATTCCT
* ** *
86053716 TAAAACAAATGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTT-G
* * * *
86053781 ATTTCCCGTTTGTTCAAAATAATT-GAATACTCCTTTAGAATTTCACTCATGTTTCCCAAATTT
64 GTTTTCCGTTTGTTCAAAATAATTAGAATACT--TTT-GAATTTCACTCATATTTCCCAAATTC
* *
86053844 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTGGT
* * * *
86053909 TTTCCTGTTTGTTCAAAATAATCA-AATATTCCTTTTGAATTTCACTCGTATTTTCTAAATTC
66 TTTCC-GTTTGTTCAAAATAATTAGAATA---CTTTTGAATTTCACTCATATTTCCCAAATTC
* * *
86053971 TAAAGCAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATTGTGCCCTACCGTGCTGGGTTTGGG
1 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTT-GG
* * * * *
86054036 TTTTTCGTTAG-ACTAAATAATTAGGCATACTTTTGTAATTT
65 TTTTCCGTTTGTTCAAAATAATTA-GAATACTTTTG-AATTT
86054077 TCAACATATA
Statistics
Matches: 199, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
125 6 0.03
126 18 0.09
127 156 0.78
128 17 0.09
130 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (124 bp):
TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTGGT
TTTCCGTTTGTTCAAAATAATTAGAATACTTTTGAATTTCACTCATATTTCCCAAATTC
Found at i:86054922 original size:25 final size:25
Alignment explanation
Indices: 86054884--86054931 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
86054874 TGAAAATTAC
*
86054884 ATTTTTTATTTTTTTA-AAATTTTAA
1 ATTTTTTA-TCTTTTACAAATTTTAA
86054909 ATTTTTTATCTTTTACAAATTTT
1 ATTTTTTATCTTTTACAAATTTT
86054932 TAATATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (25 bp):
ATTTTTTATCTTTTACAAATTTTAA
Found at i:86055856 original size:9 final size:9
Alignment explanation
Indices: 86055842--86055936 Score: 70
Period size: 9 Copynumber: 10.4 Consensus size: 9
86055832 TTTTTCACAA
86055842 AAAAATATT
1 AAAAATATT
86055851 AAAAATCA-T
1 AAAAAT-ATT
*
86055860 AAATATATAT
1 AAAAATAT-T
*
86055870 AAAATTATT
1 AAAAATATT
*
86055879 AAAAAAATT
1 AAAAATATT
*
86055888 AAAAACATT
1 AAAAATATT
*
86055897 AAATATTATT
1 AAA-AATATT
86055907 AAAAA-ATAT
1 AAAAATAT-T
*
86055916 AAAAA-AAT
1 AAAAATATT
*
86055924 AAAACTATT
1 AAAAATATT
86055933 AAAA
1 AAAA
86055937 TTTATACAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
8 8 0.12
9 45 0.66
10 15 0.22
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATATT
Found at i:86055883 original size:10 final size:10
Alignment explanation
Indices: 86055841--86055988 Score: 52
Period size: 9 Copynumber: 15.7 Consensus size: 10
86055831 TTTTTTCACA
*
86055841 AAAAAATATT
1 AAAAATTATT
*
86055851 AAAAATCA-T
1 AAAAATTATT
*
86055860 AAATA-TA-T
1 AAAAATTATT
86055868 ATAAAATTATT
1 A-AAAATTATT
*
86055879 AAAAA-AATT
1 AAAAATTATT
*
86055888 AAAAA-CATT
1 AAAAATTATT
*
86055897 AAATATTATT
1 AAAAATTATT
*
86055907 AAAAAATA-T
1 AAAAATTATT
*
86055916 AAAAA--AAT
1 AAAAATTATT
*
86055924 -AAAACTATT
1 AAAAATTATT
*
86055933 AAAATTTA-T
1 AAAAATTATT
*
86055942 ACAAACTTA-T
1 A-AAAATTATT
*
86055952 AAAAATTATAAA
1 AAAAATTAT--T
*
86055964 AAAAATTAAT
1 AAAAATTATT
86055974 AAAAA-TA-T
1 AAAAATTATT
86055982 AAAAATT
1 AAAAATT
86055989 CTAATGAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 27
0.70 0.12 0.18
Matches are distributed among these distances:
7 5 0.05
8 10 0.09
9 42 0.40
10 39 0.37
11 2 0.02
12 8 0.08
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAAATTATT
Found at i:86055890 original size:28 final size:26
Alignment explanation
Indices: 86055866--86055936 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
86055856 TCATAAATAT
86055866 ATATAAAATTATTAAAAAAATTAAAA
1 ATATAAAATTATTAAAAAAATTAAAA
*
86055892 ACATTAAATATTATT-AAAAAATATAAAA
1 ATA-TAAA-ATTATTAAAAAAAT-TAAAA
* *
86055920 AAATAAAACTATTAAAA
1 ATATAAAATTATTAAAA
86055937 TTTATACAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 7 0.18
27 18 0.47
28 13 0.34
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (26 bp):
ATATAAAATTATTAAAAAAATTAAAA
Found at i:86055910 original size:26 final size:26
Alignment explanation
Indices: 86055842--86055936 Score: 77
Period size: 28 Copynumber: 3.5 Consensus size: 26
86055832 TTTTTCACAA
* *
86055842 AAAAATATT-AAAAATCATAAATATATAT
1 AAAACTATTAAAAAAT-ATAAA-A-AAAT
* *
86055870 AAAATTATTAAAAAA-ATTAAAAACATT
1 AAAACTATTAAAAAATA-TAAAAA-AAT
*
86055897 AAATATTATTAAAAAATATAAAAAAAT
1 AAA-ACTATTAAAAAATATAAAAAAAT
86055924 AAAACTATTAAAA
1 AAAACTATTAAAA
86055937 TTTATACAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
26 10 0.18
27 11 0.19
28 30 0.53
29 6 0.11
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (26 bp):
AAAACTATTAAAAAATATAAAAAAAT
Found at i:86055919 original size:37 final size:37
Alignment explanation
Indices: 86055841--86055986 Score: 102
Period size: 37 Copynumber: 4.1 Consensus size: 37
86055831 TTTTTTCACA
*
86055841 AAAAAATATTAAAAATCA-TAAATATATATAAAATTATT
1 AAAAAA-ATTAAAAA-CATTAAATATATATAAAAATATT
86055879 AAAAAAATTAAAAACATTAAATAT-TATTAAAAA-ATAT
1 AAAAAAATTAAAAACATTAAATATATA-TAAAAATAT-T
* * *
86055916 AAAAAAA-T-AAAACTATTAAA-ATTTATACAAA-CTT
1 AAAAAAATTAAAAAC-ATTAAATATATATAAAAATATT
*
86055950 ATAAAAATTATAAAA-A--AAAT-TA-ATAAAAATA-T
1 AAAAAAATTA-AAAACATTAAATATATATAAAAATATT
86055982 AAAAA
1 AAAAA
86055987 TTCTAATGAA
Statistics
Matches: 90, Mismatches: 8, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
32 11 0.12
33 4 0.04
34 7 0.08
35 15 0.17
36 15 0.17
37 32 0.36
38 6 0.07
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (37 bp):
AAAAAAATTAAAAACATTAAATATATATAAAAATATT
Found at i:86055962 original size:9 final size:9
Alignment explanation
Indices: 86055850--86056261 Score: 86
Period size: 10 Copynumber: 43.7 Consensus size: 9
86055840 AAAAAAATAT
*
86055850 TAAAAATCA
1 TAAAAATTA
*
86055859 TAAATATATA
1 TAAAAAT-TA
86055869 TAAAATTATTA
1 TAAAA--ATTA
*
86055880 AAAAAATTA
1 TAAAAATTA
86055889 -AAAACA-T-
1 TAAAA-ATTA
*
86055896 TAAATATTA
1 TAAAAATTA
*
86055905 TTAAAAAATA
1 -TAAAAATTA
*
86055915 TAAAAA-AA
1 TAAAAATTA
*
86055923 T-AAAACTA
1 TAAAAATTA
*
86055931 TTAAAATTTA
1 -TAAAAATTA
*
86055941 TACAAACTTA
1 TA-AAAATTA
86055951 TAAAAATTA
1 TAAAAATTA
86055960 TAAAAAAAATTAA
1 T---AAAAATT-A
86055973 TAAAAA-TA
1 TAAAAATTA
*
86055981 TAAAAATTC
1 TAAAAATTA
* *
86055990 TAATGAATTC
1 TAA-AAATTA
** *
86056000 T-AATTTTT
1 TAAAAATTA
86056008 TATAAAATTAA
1 TA-AAAATT-A
86056019 TTAAACATATT-
1 -TAAA-A-ATTA
86056030 TAAAAATTTA
1 TAAAAA-TTA
*
86056040 TGAAGACA-TA
1 T-AA-AAATTA
*
86056050 TAAAAATTCT
1 TAAAAATT-A
86056060 TAAAAACTTA
1 TAAAAA-TTA
**
86056070 TAAAAAACA
1 TAAAAATTA
86056079 TAAAAA--A
1 TAAAAATTA
*
86056086 -ATAAA-TA
1 TAAAAATTA
*
86056093 TTAAAATTGA
1 TAAAAATT-A
*
86056103 TATAAACTTA
1 TA-AAAATTA
86056113 TAAAAATTA
1 TAAAAATTA
* *
86056122 TAGGAAATCA
1 TA-AAAATTA
86056132 TAAAAATTA
1 TAAAAATTA
86056141 T-AAAA-TA
1 TAAAAATTA
** *
86056148 TAGCCACTTA
1 TA-AAAATTA
86056158 TAAAAAATTA
1 T-AAAAATTA
86056168 T-AAAATTA
1 TAAAAATTA
86056176 -ATAAAATATA
1 TA-AAAAT-TA
*
86056186 TAAAATTTTA
1 TAAAA-ATTA
*
86056196 TGAAAACTTA
1 T-AAAAATTA
*
86056206 TGAAAATTCA
1 TAAAAATT-A
86056216 TAAAAACTTA
1 TAAAAA-TTA
86056226 TAAATAA-TA
1 TAAA-AATTA
86056235 TAATAAATTA
1 TAA-AAATTA
*
86056245 TTATAAATTA
1 -TAAAAATTA
86056255 TATAAAA
1 TA-AAAA
86056262 AAATTATTTA
Statistics
Matches: 298, Mismatches: 51, Indels: 107
0.65 0.11 0.23
Matches are distributed among these distances:
6 4 0.01
7 10 0.03
8 39 0.13
9 81 0.27
10 115 0.39
11 30 0.10
12 14 0.05
13 5 0.02
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:86056048 original size:22 final size:21
Alignment explanation
Indices: 86056006--86056057 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
86055996 ATTCTAATTT
*
86056006 TTTATAAAATTAATTAAACATA
1 TTTA-AAAATTAATGAAACATA
*
86056028 TTTAAAAATTTATGAAGACATA
1 TTTAAAAATTAATGAA-ACATA
86056050 --TAAAAATT
1 TTTAAAAATT
86056058 CTTAAAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 10 0.37
22 9 0.33
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (21 bp):
TTTAAAAATTAATGAAACATA
Found at i:86056145 original size:27 final size:28
Alignment explanation
Indices: 86056110--86056175 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
86056100 TGATATAAAC
*
86056110 TTATAAAAATTATAGGAAATCAT-AAAAA
1 TTAT-AAAATTATAGCAAATCATAAAAAA
* * *
86056138 TTATAAAA-TATAGCCACTTATAAAAAA
1 TTATAAAATTATAGCAAATCATAAAAAA
86056165 TTATAAAATTA
1 TTATAAAATTA
86056176 ATAAAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 9 0.28
27 17 0.53
28 6 0.19
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.32
Consensus pattern (28 bp):
TTATAAAATTATAGCAAATCATAAAAAA
Found at i:86056248 original size:22 final size:23
Alignment explanation
Indices: 86056223--86056273 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
86056213 TCATAAAAAC
*
86056223 TTATAAATAATAT-AATAAATTA
1 TTATAAATAATATAAAAAAATTA
*
86056245 TTATAAATTATATAAAAAAATTA
1 TTATAAATAATATAAAAAAATTA
86056268 TT-TAAA
1 TTATAAA
86056274 CCCCTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TTATAAATAATATAAAAAAATTA
Found at i:86056884 original size:16 final size:18
Alignment explanation
Indices: 86056853--86056885 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86056843 ATTTTTTAGA
86056853 TTTTTATAAATATTTATT
1 TTTTTATAAATATTTATT
86056871 TTTTTA-AAAT-TTTAT
1 TTTTTATAAATATTTAT
86056886 AAACTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTATAAATATTTATT
Found at i:86058388 original size:3 final size:3
Alignment explanation
Indices: 86058380--86058407 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
86058370 AAGAGATAGT
86058380 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
86058408 GAGATAGCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:86062539 original size:14 final size:14
Alignment explanation
Indices: 86062502--86062540 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
86062492 ATTAGTAATT
86062502 ATTTAAGTTAATTAA
1 ATTTAA-TTAATTAA
* *
86062517 ATATGATTAATTAA
1 ATTTAATTAATTAA
86062531 ATTTAATTAA
1 ATTTAATTAA
86062541 CCTATAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (14 bp):
ATTTAATTAATTAA
Found at i:86066797 original size:19 final size:19
Alignment explanation
Indices: 86066773--86066810 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
86066763 TTTCATGGTC
86066773 TAGCCTCTAGTAAGATGAA
1 TAGCCTCTAGTAAGATGAA
86066792 TAGCCTCTAGTAAGATGAA
1 TAGCCTCTAGTAAGATGAA
86066811 AACTAGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (19 bp):
TAGCCTCTAGTAAGATGAA
Found at i:86082239 original size:53 final size:52
Alignment explanation
Indices: 86082158--86082314 Score: 172
Period size: 53 Copynumber: 3.0 Consensus size: 52
86082148 AGGGAAAGAA
* *
86082158 GCCAAAGTGAAAACCCGCAAAGAGCGCTTTGAGACTTTTCAAAAA-AAAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTTAT-AAAAATAAAAAGG
* * **
86082210 GTCCAAAGTGTAAACCCGCAAAGGGCGCTTTGAGACCATATAAAAATGGAAAGG
1 G-CCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGA-CTTATAAAAATAAAAAGG
* * * * *
86082264 GCCGAAGTAAAAACCCGCAAAGGGCACTTTGAGACTCAATAATAATAAAAA
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACT-TATAAAAATAAAAA
86082315 AGGAAAAAGA
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 75 0.87
54 9 0.10
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (52 bp):
GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTTATAAAAATAAAAAGG
Found at i:86083570 original size:43 final size:45
Alignment explanation
Indices: 86083508--86083593 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 45
86083498 CCTCATCTCT
**
86083508 CTGAGGTAACAAGAGAGCAGGTTGAAGAATG-AG-TCTTATCTTC
1 CTGAGGTAACAAGAGAGCAGACTGAAGAATGAAGATCTTATCTTC
* *
86083551 CTGAGGTAGCAAG-GAAGCAGACTGAAGAGTGAAGATCTTATCT
1 CTGAGGTAACAAGAG-AGCAGACTGAAGAATGAAGATCTTATCT
86083594 CCCAAAGCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 25 0.69
44 2 0.06
45 8 0.22
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (45 bp):
CTGAGGTAACAAGAGAGCAGACTGAAGAATGAAGATCTTATCTTC
Found at i:86083754 original size:163 final size:163
Alignment explanation
Indices: 86083484--86083807 Score: 429
Period size: 163 Copynumber: 2.0 Consensus size: 163
86083474 CAATGAAGCA
* * *
86083484 GATTTTACCACCAGCCTCATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCT
1 GATTTTACCACCAGCCTCATCCCTCTGAGGTAACAAGAGAACAGGTTAAAGAATGAGTCTTATCT
* *
86083549 TCCTGAGGTAGCAAGGAAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGCAGTAGCGGAGCA
66 TCCTGAGGAAGCAAGAAAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGCAGTAGCGGAGCA
* * *
86083614 GATC-GAAAAAGGCGAATCTTATCTTCATGTATC
131 GATCAG-AAAAGACAAATCTTATCTCCATGTATC
* * * *
86083647 GATTTTATCACTAGCCTTATCCCTCTGGGGTAACAAGAGAACAGGTTAAAG-ATGGAGTCTTATC
1 GATTTTACCACCAGCCTCATCCCTCTGAGGTAACAAGAGAACAGGTTAAAGAAT-GAGTCTTATC
** * * * *
86083711 ATT-CTGAGGAAGCAAGAAATTAGACTGAAGATTGAAGATCTTATTTTCCTAAGCAGTAGCGGAG
65 -TTCCTGAGGAAGCAAGAAAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGCAGTAGCGGAG
*
86083775 CAGATCAGAAATGACAAATCTTATCTCCATGTA
129 CAGATCAGAAAAGACAAATCTTATCTCCATGTA
86083808 CCCGCAATGG
Statistics
Matches: 139, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
162 2 0.01
163 134 0.96
164 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (163 bp):
GATTTTACCACCAGCCTCATCCCTCTGAGGTAACAAGAGAACAGGTTAAAGAATGAGTCTTATCT
TCCTGAGGAAGCAAGAAAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGCAGTAGCGGAGCA
GATCAGAAAAGACAAATCTTATCTCCATGTATC
Found at i:86084180 original size:13 final size:13
Alignment explanation
Indices: 86084133--86084193 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
86084123 GGCCCATTAG
86084133 AATAAAAAA-ATAGA
1 AATAAAAAACA-A-A
* *
86084147 AATTAAAAACCAA
1 AATAAAAAACAAA
*
86084160 AA-ACAAAACAAA
1 AATAAAAAACAAA
*
86084172 AATAAAAAACACA
1 AATAAAAAACAAA
86084185 AATAAAAAA
1 AATAAAAAA
86084194 TCCAAATTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
12 9 0.24
13 20 0.53
14 9 0.24
ACGTcount: A:0.79, C:0.10, G:0.02, T:0.10
Consensus pattern (13 bp):
AATAAAAAACAAA
Found at i:86084200 original size:13 final size:13
Alignment explanation
Indices: 86084146--86084193 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
86084136 AAAAAAATAG
*
86084146 AAATTAAAAAC-C
1 AAATAAAAAACAC
*
86084158 AAA-AACAAAACAA
1 AAATAA-AAAACAC
86084171 AAATAAAAAACAC
1 AAATAAAAAACAC
86084184 AAATAAAAAA
1 AAATAAAAAA
86084194 TCCAAATTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 1 0.03
12 8 0.27
13 19 0.63
14 2 0.07
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.08
Consensus pattern (13 bp):
AAATAAAAAACAC
Found at i:86097557 original size:21 final size:21
Alignment explanation
Indices: 86097518--86097557 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
86097508 TCGGTTTGTG
**
86097518 TAACACCCCTAACTTGTATTA
1 TAACACCCCTAACCCGTATTA
86097539 TAACACCCCTAACCCGTAT
1 TAACACCCCTAACCCGTAT
86097558 CTGTCGTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.35, G:0.05, T:0.28
Consensus pattern (21 bp):
TAACACCCCTAACCCGTATTA
Found at i:86104876 original size:18 final size:19
Alignment explanation
Indices: 86104827--86104869 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
86104817 TAAATGGATA
*
86104827 ATTATCTAATT-AAT-TTT
1 ATTATTTAATTAAATATTT
86104844 ATTATTTAATTAAATATTT
1 ATTATTTAATTAAATATTT
86104863 ATT-TTTA
1 ATTATTTA
86104870 GATAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 7 0.30
19 6 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTATTTAATTAAATATTT
Found at i:86108112 original size:15 final size:16
Alignment explanation
Indices: 86108094--86108124 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
86108084 TAAAAGTTTT
86108094 AAAATTAT-AAAATAA
1 AAAATTATGAAAATAA
86108109 AAAATTATGAAAATAA
1 AAAATTATGAAAATAA
86108125 TTTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAATTATGAAAATAA
Found at i:86108675 original size:26 final size:24
Alignment explanation
Indices: 86108627--86108675 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
86108617 GAATTTTAGA
* *
86108627 ATTTTTATTTTTTGAATTTTAAAG
1 ATTTTTATTTTTAGAATTATAAAG
86108651 ATTTTTAATTTTTAAGAATTATAAA
1 ATTTTT-ATTTTT-AGAATTATAAA
86108676 TTTAAAAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 6 0.29
26 9 0.43
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (24 bp):
ATTTTTATTTTTAGAATTATAAAG
Found at i:86108678 original size:24 final size:22
Alignment explanation
Indices: 86108617--86108678 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
86108607 AAATAATATT
*
86108617 GAATTTTAGAATTTTTATTTTTT
1 GAATTTTA-AATTTTTATTTTTA
86108640 GAATTTTAAAGATTTTTAATTTTTAA
1 GAATTTT-AA-ATTTTT-ATTTTT-A
*
86108666 GAATTATAAATTT
1 GAATTTTAAATTT
86108679 AAAAGTCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
23 8 0.24
24 11 0.33
25 8 0.24
26 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (22 bp):
GAATTTTAAATTTTTATTTTTA
Found at i:86109839 original size:31 final size:31
Alignment explanation
Indices: 86109796--86109859 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
86109786 CCTTTTCATA
*
86109796 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTAGGCCGAAGCCT
* **
86109827 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATAATTCATAACACTAGGCCGAAGCCT
86109858 TT
1 TT
86109860 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTAGGCCGAAGCCT
Found at i:86110182 original size:23 final size:23
Alignment explanation
Indices: 86110074--86110242 Score: 230
Period size: 23 Copynumber: 7.1 Consensus size: 23
86110064 CCTAGCCTCT
* * *
86110074 TTTAGTAACCGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
86110097 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
86110121 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
*
86110146 TTCATCATAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
86110171 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
86110194 TTTAATAACTGGGGTATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
86110217 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
86110240 TTT
1 TTT
86110243 TGCACTTCCT
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
23 69 0.53
24 19 0.15
25 42 0.32
27 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:86110315 original size:9 final size:9
Alignment explanation
Indices: 86110301--86110357 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
86110291 ATCTCATGTG
86110301 CATATCATA
1 CATATCATA
*
86110310 CATATCATGTG
1 CATATCA--TA
86110321 CATATCATA
1 CATATCATA
* *
86110330 CATGTCATGTG
1 CATATCA--TA
86110341 CATATCATA
1 CATATCATA
86110350 CATATCAT
1 CATATCAT
86110358 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:86110317 original size:20 final size:20
Alignment explanation
Indices: 86110289--86110359 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
86110279 GCATTTATGA
*
86110289 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
86110309 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
86110329 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
86110349 ACATATCATGT
1 ACATATCATGT
86110360 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:86110324 original size:11 final size:11
Alignment explanation
Indices: 86110294--86110348 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
86110284 TATGAACATC
86110294 TCATGTGCATA
1 TCATGTGCATA
*
86110305 TCA--TACATA
1 TCATGTGCATA
86110314 TCATGTGCATA
1 TCATGTGCATA
* *
86110325 TCA--TACATG
1 TCATGTGCATA
86110334 TCATGTGCATA
1 TCATGTGCATA
86110345 TCAT
1 TCAT
86110349 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:86111621 original size:27 final size:28
Alignment explanation
Indices: 86111590--86111685 Score: 112
Period size: 27 Copynumber: 3.6 Consensus size: 28
86111580 TACGGAACAT
* *
86111590 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACAGTCACTTTACCCTAC
*
86111617 AAGGG-TATTACGGTCACTTTACCCTAC
1 AAGGGCTATTACAGTCACTTTACCCTAC
*
86111644 AGGGGCT-TTACAGTCACTTTACCCTAC
1 AAGGGCTATTACAGTCACTTTACCCTAC
86111671 AAGGGCT-TTACAGTC
1 AAGGGCTATTACAGTC
86111686 TTTTTACCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
25 4 0.07
26 1 0.02
27 55 0.90
28 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (28 bp):
AAGGGCTATTACAGTCACTTTACCCTAC
Found at i:86111693 original size:27 final size:27
Alignment explanation
Indices: 86111602--86111685 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
86111592 GGGCATATTC
* * *
86111602 GTCATTTTACCATACAAGGG-TATTACG
1 GTCACTTTACCCTACAAGGGCT-TTACA
*
86111629 GTCACTTTACCCTACAGGGGCTTTACA
1 GTCACTTTACCCTACAAGGGCTTTACA
86111656 GTCACTTTACCCTACAAGGGCTTTACA
1 GTCACTTTACCCTACAAGGGCTTTACA
86111683 GTC
1 GTC
86111686 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAAGGGCTTTACA
Found at i:86111804 original size:27 final size:27
Alignment explanation
Indices: 86111727--86111959 Score: 204
Period size: 27 Copynumber: 8.7 Consensus size: 27
86111717 CATCCTACAA
* * * * *
86111727 GGGTGTTTTGGTAAATCTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
* * **
86111754 GGGTATTTTTGTAACTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
* *
86111781 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAATCAG
* * *
86111808 GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
* *
86111835 TGGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAATCAG
*
86111862 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
* *
86111888 AGGGTATTTCT-GTAATTTTACAAACCAA
1 -GGGTATTT-TGGTAATTTTACAAATCAG
* * *
86111916 GGGTATTTTAGTAATTTTATAGA-CTA-
1 GGGTATTTTGGTAATTTTACAAATC-AG
*
86111942 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
86111960 GTAAATCGAG
Statistics
Matches: 170, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
26 21 0.12
27 148 0.87
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:86111810 original size:81 final size:81
Alignment explanation
Indices: 86111725--86111959 Score: 282
Period size: 81 Copynumber: 2.9 Consensus size: 81
86111715 TTCATCCTAC
* * * * *
86111725 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTTGTAACTTTGTAAATCAGGGGTATTTT
1 AAGGGTATTTTGGTAAATTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCAGGGGTATTTT
86111790 GGTAATTTTACAAATT
66 GGTAATTTTACAAATT
* * * *
86111806 AAGGGTATTTCGGT-AATTTCACAAACC-AGTGGTATTTTGGTAATTTTACAAATTAGGGGTATT
1 AAGGGTATTTTGGTAAATTT-ACAAACCAAG-GGTATTTTAGTAATTTTATAAATCAGGGGTATT
86111869 TTGGTAATTTTACAAATT
64 TTGGTAATTTTACAAATT
* * *
86111887 GAGGGTATTTCT-GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAGA-CTA-GGGTATT
1 AAGGGTATTT-TGGTAAATTTACAAACCAAGGGTATTTTAGTAATTTTATAAATC-AGGGGTATT
*
86111949 TTAGTAATTTT
64 TTGGTAATTTT
86111960 GTAAATCGAG
Statistics
Matches: 132, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
80 23 0.17
81 103 0.78
82 6 0.05
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTTGGTAAATTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCAGGGGTATTTT
GGTAATTTTACAAATT
Found at i:86111933 original size:54 final size:53
Alignment explanation
Indices: 86111726--86111959 Score: 229
Period size: 54 Copynumber: 4.4 Consensus size: 53
86111716 TCATCCTACA
* * * * * **
86111726 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTTGTAACTTTGTAAATC
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATC
** * * *
86111779 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACC
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATC
** * *
86111833 AGTGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAATTG
1 AG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAA-TC
* * *
86111888 AGGGTATTTCT-GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAGA-C
1 AGGGTATTT-TGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATC
*
86111940 TAGGGTATTTTAGTAATTTT
1 -AGGGTATTTTGGTAATTTT
86111960 GTAAATCGAG
Statistics
Matches: 151, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
53 19 0.13
54 128 0.85
55 3 0.02
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAATC
Found at i:86111981 original size:27 final size:27
Alignment explanation
Indices: 86111951--86112081 Score: 154
Period size: 27 Copynumber: 4.9 Consensus size: 27
86111941 AGGGTATTTT
*
86111951 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
86111978 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
86112005 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
86112032 GGTACTTTTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
86112059 TGTAATTATGAAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
86112082 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:86111997 original size:80 final size:81
Alignment explanation
Indices: 86111737--86112000 Score: 223
Period size: 81 Copynumber: 3.3 Consensus size: 81
86111727 GGGTGTTTTG
* * * *
86111737 GTAAATCTACAAACCAAGGGTATTTTTGTAACTTTGTA-AATC-AGGGGTATTTTGGTAATTTTA
1 GTAATTCTACAAACCAAGGGTATTTTAGTAA-TTT-TACAAACTAGGGGTATTTTAGTAATTTTA
** *** *
86111800 CAAATTAAGGGTATTTCG
64 CAAATCGAGGGTAAAACA
* * *
86111818 GTAATT-TCACAAACC-AGTGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTA
1 GTAATTCT-ACAAACCAAG-GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTA
* *** *
86111881 CAAATTGAGGGTATTTCT
64 CAAATCGAGGGTAAAACA
* * * **
86111899 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAGACTA-GGGTATTTTAGTAATTTTGTA
1 GTAATTCTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACA
86111963 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACA
** *
86111979 GTAATTCTGTAAATCAAGGGTA
1 GTAATTCTACAAACCAAGGGTA
86112001 AAACAGTAAT
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
79 2 0.01
80 55 0.35
81 95 0.61
82 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACA
AATCGAGGGTAAAACA
Found at i:86116593 original size:23 final size:23
Alignment explanation
Indices: 86116563--86116620 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
86116553 ATATCTTTAT
*
86116563 TTTCACTTGATTGTTCTGCTATG
1 TTTCACTTGATTGTTCTACTATG
*
86116586 TTTCACTTGATTGTTCTACTGTG
1 TTTCACTTGATTGTTCTACTATG
*
86116609 TTCCACTTGATT
1 TTTCACTTGATT
86116621 TCTAAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.14, C:0.19, G:0.16, T:0.52
Consensus pattern (23 bp):
TTTCACTTGATTGTTCTACTATG
Found at i:86117420 original size:19 final size:18
Alignment explanation
Indices: 86117398--86117455 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
86117388 TCTAGTATAC
86117398 ATTAAATATGTGAATACAT
1 ATTAAATATGTGAATA-AT
*
86117417 ATTATATA-GT-AA-AAT
1 ATTAAATATGTGAATAAT
*
86117432 AATAAATATGTGAATATAT
1 ATTAAATATGTGAATA-AT
86117451 ATTAA
1 ATTAA
86117456 GATTATGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 8 0.26
16 3 0.10
17 4 0.13
18 3 0.10
19 13 0.42
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (18 bp):
ATTAAATATGTGAATAAT
Found at i:86119198 original size:16 final size:17
Alignment explanation
Indices: 86119177--86119209 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
86119167 AGGGAAGGAT
*
86119177 AAAAAATTTTA-AATAA
1 AAAAAAGTTTACAATAA
86119193 AAAAAAGTTTACAATAA
1 AAAAAAGTTTACAATAA
86119210 CTCAATATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAAAAGTTTACAATAA
Found at i:86120203 original size:13 final size:13
Alignment explanation
Indices: 86120185--86120209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86120175 CATCATTTAC
86120185 TTCTATAGGCATT
1 TTCTATAGGCATT
86120198 TTCTATAGGCAT
1 TTCTATAGGCAT
86120210 GACAAAACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
TTCTATAGGCATT
Found at i:86122164 original size:159 final size:158
Alignment explanation
Indices: 86121885--86122181 Score: 395
Period size: 159 Copynumber: 1.9 Consensus size: 158
86121875 ATTTTTAAAT
* * * *
86121885 TAAATAAAATCTGTTTAGGGATTTATTCCCGCCGTTCAGCATATTTTATTCTCTATTTTGTTTTT
1 TAAATAAAATCTATTTAGGGATTTATTCCCACCGTTCAACAGATTTTATTCTCTATTTTGTTTTT
* * *
86121950 ATTTCCAAACAAATATTAAAATTAAATAAAAATTGTTTTGGGTTTTATTCTTGTCGTTTAACAGA
66 ATTTCCAAACAAATATTAAAATTAAAT-AAAATTCTTTTGGGATTTATTCTTGTCGTTCAACAGA
86122015 TTTTATTCGATTTTGTTTCAAATTAAAAG
130 TTTTATTCGATTTTGTTTCAAATTAAAAG
* * *
86122044 TAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTC-C-ATTTTTTATTT
1 TAAATAAAATCTATTTAGGGATTTATTCCCACCGTTCAACAGATTTTATTCTCTATTTTGT-TTT
* *
86122107 TATTTCCAAACGGGAA-ATTAAAGTTAAAT-AAATTCCCTTTTGGGATTTATTCTTGTCGTTCAA
65 TATTTCCAAAC--AAATATTAAAATTAAATAAAATT--CTTTTGGGATTTATTCTTGTCGTTCAA
*
86122170 TAGATTTTATTC
126 CAGATTTTATTC
86122182 CAATTTTGAT
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
157 11 0.09
158 15 0.12
159 92 0.77
160 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (158 bp):
TAAATAAAATCTATTTAGGGATTTATTCCCACCGTTCAACAGATTTTATTCTCTATTTTGTTTTT
ATTTCCAAACAAATATTAAAATTAAATAAAATTCTTTTGGGATTTATTCTTGTCGTTCAACAGAT
TTTATTCGATTTTGTTTCAAATTAAAAG
Found at i:86122236 original size:87 final size:86
Alignment explanation
Indices: 86122034--86122242 Score: 208
Period size: 87 Copynumber: 2.4 Consensus size: 86
86122024 ATTTTGTTTC
* * * *
86122034 AAATTAAAAGTAAATAAAATCTATTTCGGGATTTATTCCCACCGTTCAACGGATTTTATTCCATT
1 AAATTAAAATTAAATAAAAT-TTTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCAAT
* *
86122099 TTTTATTTTATTTCCAAACGGG
65 TTTGATTTTATTTCCAAACGAG
* **** *
86122121 AAATTAAAGTTAAAT-AAATTCCCTTTT-GGGATTTATTCTTGTCGTTCAATAGATTTTATTCCA
1 AAATTAAAATTAAATAAAATT---TTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCA
86122184 ATTTTGATTTTATTTCCACAACGAG
63 ATTTTGATTTTATTTCCA-AACGAG
* *
86122209 -CATTAAAATTAAAATAAAATTTGTTTGGGGATTT
1 AAATTAAAATT-AAATAAAATTT-TTTCGGGATTT
86122243 CGCTTCTCCG
Statistics
Matches: 100, Mismatches: 14, Indels: 15
0.78 0.11 0.12
Matches are distributed among these distances:
85 1 0.01
86 5 0.05
87 70 0.70
88 19 0.19
89 5 0.05
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (86 bp):
AAATTAAAATTAAATAAAATTTTTTCGGGATTTATTCCCACCGTTCAACAGATTTTATTCCAATT
TTGATTTTATTTCCAAACGAG
Found at i:86125697 original size:10 final size:10
Alignment explanation
Indices: 86125682--86125745 Score: 69
Period size: 10 Copynumber: 6.3 Consensus size: 10
86125672 GCAACCCAAT
86125682 TTTTATTTTA
1 TTTTATTTTA
86125692 TTTTATTTTA
1 TTTTATTTTA
*
86125702 GTTTATTTTA
1 TTTTATTTTA
86125712 TTTT-TATTTA
1 TTTTAT-TTTA
*
86125722 TTTT-TCTTA
1 TTTTATTTTA
86125731 TTTTTATTATTA
1 -TTTTATT-TTA
86125743 TTT
1 TTT
86125746 ATTATTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
9 4 0.09
10 35 0.76
11 4 0.09
12 3 0.07
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:86125706 original size:15 final size:15
Alignment explanation
Indices: 86125680--86125752 Score: 71
Period size: 15 Copynumber: 4.7 Consensus size: 15
86125670 AGGCAACCCA
86125680 ATTTTTATTTTATTTT
1 ATTTTTA-TTTATTTT
86125696 A-TTTTAGTTTATTTT
1 ATTTTTA-TTTATTTT
86125711 ATTTTTATTTATTTT
1 ATTTTTATTTATTTT
86125726 -TCTTATT-TTTATTATT
1 AT-TT-TTATTTATT-TT
86125742 ATTTATTATTT
1 ATTT-TTATTT
86125753 TTAGATATTA
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
14 1 0.02
15 30 0.60
16 15 0.30
17 4 0.08
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.77
Consensus pattern (15 bp):
ATTTTTATTTATTTT
Found at i:86125733 original size:19 final size:19
Alignment explanation
Indices: 86125709--86125755 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
86125699 TTAGTTTATT
*
86125709 TTATTTTTATTTATT-TTTC
1 TTATTTTTA-TTATTATTTA
86125728 TTATTTTTATTATTATTTA
1 TTATTTTTATTATTATTTA
86125747 TTATTTTTA
1 TTATTTTTA
86125756 GATATTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (19 bp):
TTATTTTTATTATTATTTA
Found at i:86125735 original size:25 final size:25
Alignment explanation
Indices: 86125680--86125748 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
86125670 AGGCAACCCA
86125680 ATTTTTA-TTTTATTTTATTTTAGTTT
1 ATTTTTATTTTTA-TTTATTTTA-TTT
86125706 A-TTTTATTTTTATTTATTTT-TCTT
1 ATTTTTATTTTTATTTATTTTAT-TT
*
86125730 ATTTTTATTATTATTTATT
1 ATTTTTATTTTTATTTATT
86125749 ATTTTTAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 1 0.03
24 3 0.08
25 29 0.74
26 6 0.15
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (25 bp):
ATTTTTATTTTTATTTATTTTATTT
Found at i:86126589 original size:20 final size:20
Alignment explanation
Indices: 86126564--86126603 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
86126554 TAATTTTAGG
86126564 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
86126584 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
86126604 TAGAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:86130890 original size:20 final size:20
Alignment explanation
Indices: 86130861--86130903 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
86130851 ATATATCCTG
86130861 ATTTATTTGATTCTAAT-AA
1 ATTTATTTGATTCTAATCAA
*
86130880 ATTTGATTTGATTTTAATCAA
1 ATTT-ATTTGATTCTAATCAA
86130901 ATT
1 ATT
86130904 AATTCAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (20 bp):
ATTTATTTGATTCTAATCAA
Found at i:86132540 original size:46 final size:46
Alignment explanation
Indices: 86132473--86132601 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
86132463 TGTAACCCGC
* * * *
86132473 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
86132519 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
86132565 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
86132602 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:86132620 original size:46 final size:45
Alignment explanation
Indices: 86132481--86132620 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
86132471 GCCCATAAGC
* ** * *
86132481 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
86132527 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
86132573 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
86132619 GA
1 GA
86132621 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:86137823 original size:48 final size:48
Alignment explanation
Indices: 86137763--86138012 Score: 374
Period size: 48 Copynumber: 5.2 Consensus size: 48
86137753 CGGCCACAAT
* * *
86137763 ATATACACATCTCATACATATTTCACATTAGCCATACGGCTTTACTAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
86137811 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* **
86137859 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* **
86137907 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
86137955 ATATACATATCTCATACATTTTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
86138003 ACATATATAT
1 ATATACATAT
86138013 ATTTATCTTG
Statistics
Matches: 187, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 187 1.00
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:86150268 original size:179 final size:179
Alignment explanation
Indices: 86149968--86150324 Score: 714
Period size: 179 Copynumber: 2.0 Consensus size: 179
86149958 CGAGGACATA
86149968 ATGGGGTATGGGGTTATCATTCGAGACAATGATTGTTTTGTGCTCGAGGGTGGTGGGGGTTTTAT
1 ATGGGGTATGGGGTTATCATTCGAGACAATGATTGTTTTGTGCTCGAGGGTGGTGGGGGTTTTAT
86150033 GGACACTAAAATGTCAGTACAGGAGGCGGAATACATTGCGTTTGAGAGAAGCATTGAGCTAGCCG
66 GGACACTAAAATGTCAGTACAGGAGGCGGAATACATTGCGTTTGAGAGAAGCATTGAGCTAGCCG
86150098 GTCACCTCAACATTAATGATAATGTGCTGTTTTAAACTGACCATGGGGT
131 GTCACCTCAACATTAATGATAATGTGCTGTTTTAAACTGACCATGGGGT
86150147 ATGGGGTATGGGGTTATCATTCGAGACAATGATTGTTTTGTGCTCGAGGGTGGTGGGGGTTTTAT
1 ATGGGGTATGGGGTTATCATTCGAGACAATGATTGTTTTGTGCTCGAGGGTGGTGGGGGTTTTAT
86150212 GGACACTAAAATGTCAGTACAGGAGGCGGAATACATTGCGTTTGAGAGAAGCATTGAGCTAGCCG
66 GGACACTAAAATGTCAGTACAGGAGGCGGAATACATTGCGTTTGAGAGAAGCATTGAGCTAGCCG
86150277 GTCACCTCAACATTAATGATAATGTGCTGTTTTAAACTGACCATGGGG
131 GTCACCTCAACATTAATGATAATGTGCTGTTTTAAACTGACCATGGGG
86150325 GCCTTGTTAA
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 178 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (179 bp):
ATGGGGTATGGGGTTATCATTCGAGACAATGATTGTTTTGTGCTCGAGGGTGGTGGGGGTTTTAT
GGACACTAAAATGTCAGTACAGGAGGCGGAATACATTGCGTTTGAGAGAAGCATTGAGCTAGCCG
GTCACCTCAACATTAATGATAATGTGCTGTTTTAAACTGACCATGGGGT
Found at i:86151909 original size:25 final size:25
Alignment explanation
Indices: 86151881--86151951 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
86151871 AAGTGTGTAC
86151881 ATAGTATTAAAAATATATACATAAT
1 ATAGTATTAAAAATATATACATAAT
** * * *
86151906 ATAGCGTTAAAATTACATGCATAAT
1 ATAGTATTAAAAATATATACATAAT
86151931 ATAGTTATTAAAAATAATATA
1 ATAG-TATTAAAAAT-ATATA
86151952 TATTCATAAG
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
25 24 0.71
26 7 0.21
27 3 0.09
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:86152184 original size:21 final size:21
Alignment explanation
Indices: 86152160--86152200 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
86152150 TTACATAAAT
86152160 ATACACATAT-ATATTAAAAAA
1 ATACACA-ATGATATTAAAAAA
*
86152181 ATACATAATGATATTAAAAA
1 ATACACAATGATATTAAAAA
86152201 TGCGTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (21 bp):
ATACACAATGATATTAAAAAA
Found at i:86152571 original size:20 final size:20
Alignment explanation
Indices: 86152546--86152590 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
86152536 AAATATATAC
86152546 ATATACA-TATATAATAAAAA
1 ATATACACTAT-TAATAAAAA
*
86152566 ATATACACTATTAATAATAA
1 ATATACACTATTAATAAAAA
86152586 ATATA
1 ATATA
86152591 GTAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATACACTATTAATAAAAA
Found at i:86152722 original size:3 final size:3
Alignment explanation
Indices: 86152714--86152897 Score: 92
Period size: 3 Copynumber: 61.0 Consensus size: 3
86152704 AATATTATAC
* * *
86152714 ATA ATA ATA ATA CTA GA-A ATA ATA ATA GCTA GTA ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA
* * * *
86152762 AAA ATA ATA ATA ATG ATA CT- ATA TTA ATA A-A ATA ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
86152807 AGGA ATA AAA ACA ATG TTA ATA ACA AGA ATA TTA ATA ATA GTA ATA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
86152853 AT- ATAA ATA ATA ATA TTA ATA ATA TTA GA-A ATG ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
86152898 TTTAATAAAA
Statistics
Matches: 134, Mismatches: 34, Indels: 26
0.69 0.18 0.13
Matches are distributed among these distances:
2 9 0.07
3 115 0.86
4 8 0.06
5 2 0.01
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:86152740 original size:135 final size:135
Alignment explanation
Indices: 86152482--86152740 Score: 332
Period size: 136 Copynumber: 1.9 Consensus size: 135
86152472 ATACGTAAAC
*
86152482 ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAATACTATGTACAAAAATATATACA
1 ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAAAACTATGTACAAAAATATATA-A
* * * *
86152547 TATACATATATAATAAAAAATATACACTATTAATAATAAATATAGTAATAATATTAATAACAAAA
65 TATACATATATAATAAAAAATACACAATATTAATAATAAATATACTAATAATAATAATAACAAAA
86152612 GCAAAT
130 GCAAAT
* * *
86152618 ATAATGTAATAAATATATTAAAATAAAGTAATTA-AAAATAAAACTATGTA-TAAAA-ATAT-AT
1 ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAAAACTATGTACAAAAATATATAAT
*
86152679 ATACATATATAATAAAACATACACTAATATT-ATACATAATAATAATACTAGA-AATAATAATA
66 ATACATATATAATAAAAAATACAC-AATATTAATA-AT-A-AAT-ATACTA-ATAATAATAATA
86152741 GCTAGTAATA
Statistics
Matches: 108, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
131 27 0.25
132 7 0.06
133 5 0.05
134 7 0.06
135 29 0.27
136 33 0.31
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (135 bp):
ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAAAACTATGTACAAAAATATATAAT
ATACATATATAATAAAAAATACACAATATTAATAATAAATATACTAATAATAATAATAACAAAAG
CAAAT
Found at i:86153463 original size:16 final size:16
Alignment explanation
Indices: 86153442--86153475 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
86153432 TGGTGGAGCA
*
86153442 GGTGGCAGTGGGTGGT
1 GGTGGCAGAGGGTGGT
86153458 GGTGGCAGAGGGTGGT
1 GGTGGCAGAGGGTGGT
86153474 GG
1 GG
86153476 CAGACCATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.06, G:0.65, T:0.21
Consensus pattern (16 bp):
GGTGGCAGAGGGTGGT
Found at i:86153471 original size:13 final size:13
Alignment explanation
Indices: 86153455--86153479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86153445 GGCAGTGGGT
86153455 GGTGGTGGCAGAG
1 GGTGGTGGCAGAG
86153468 GGTGGTGGCAGA
1 GGTGGTGGCAGA
86153480 CCATAGGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.60, T:0.16
Consensus pattern (13 bp):
GGTGGTGGCAGAG
Found at i:86153530 original size:13 final size:13
Alignment explanation
Indices: 86153512--86153536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86153502 GGCTAGGGTT
86153512 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
86153525 TTTTTTTGTTTT
1 TTTTTTTGTTTT
86153537 AGATATTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:86154254 original size:86 final size:89
Alignment explanation
Indices: 86154118--86154286 Score: 245
Period size: 86 Copynumber: 1.9 Consensus size: 89
86154108 AAAATAGAAC
*
86154118 TTGAAAATACCTCAGCATATGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTT-
1 TTGAAAATACCTCAGCA-ATGACCCGAGGCTCAACTCACCTCTCGCAATATAAGATGATTTTTTG
*
86154181 AAAAACAGAATTTGAAAAACAAAAA
65 AAAAACAGAAATTGAAAAACAAAAA
* * * *
86154206 TTGAAAATACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGATGATTTTTTGA
1 TTGAAAATACCTCAGCAATGACCCGAGGCTCAACTCACCTCTCGCAATATAAGATGATTTTTTGA
*
86154270 AAAGCAGAAATTGAAAA
66 AAAACAGAAATTGAAAA
86154287 TACCTCAGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 35 0.49
87 5 0.07
88 32 0.44
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (89 bp):
TTGAAAATACCTCAGCAATGACCCGAGGCTCAACTCACCTCTCGCAATATAAGATGATTTTTTGA
AAAACAGAAATTGAAAAACAAAAA
Found at i:86154377 original size:73 final size:72
Alignment explanation
Indices: 86154191--86154573 Score: 552
Period size: 73 Copynumber: 5.2 Consensus size: 72
86154181 AAAAACAGAA
* *
86154191 TTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTG-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
*
86154256 AGATGATTT
65 AGTTGA-TT
*
86154265 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTTAACTCACCTCTCGCAATATG
1 TTTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
86154330 AGTTGATT
65 AGTTGATT
* * *
86154338 TTTGACAAACAGAAATTGAAATTACCTCAGCTTGTCCCGAGGCTTAACTCACCTCTCGCAATATG
1 TTTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
86154403 AGTTGATT
65 AGTTGATT
* *
86154411 TTTAACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGG-TTCAACTCACCTCTCGCAATAT
1 TTTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTT-AACTCACCTCTCGCAATAT
86154475 GAGTTGATTTT
64 GAGTTGA--TT
* * * * *
86154486 TTTGAAAGACAGAAATGGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACTTCTCGCAATATA
1 TTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
86154551 AGTTGATT
65 AGTTGATT
86154559 TTTGAAAACAGAAAT
1 TTTGAAAACAGAAAT
86154574 AAAAACATCA
Statistics
Matches: 286, Mismatches: 16, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
72 10 0.03
73 147 0.51
74 67 0.23
75 60 0.21
76 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (72 bp):
TTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGA
GTTGATT
Found at i:86162874 original size:22 final size:22
Alignment explanation
Indices: 86162849--86162893 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
86162839 ATGCAATAAA
*
86162849 TGAATGAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
*
86162871 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATGAATGT
86162893 T
1 T
86162894 AGTCATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.29
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:86167106 original size:21 final size:21
Alignment explanation
Indices: 86167082--86167147 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
86167072 TAATATTACA
*
86167082 TAAATATACACATATATATAT
1 TAAAAATACACATATATATAT
* *
86167103 TAAAAAAATACATA-ATGATAT
1 TAAAAATACACATATAT-ATAT
86167124 TAAAAATACGTACATAATATATAT
1 TAAAAATAC--ACAT-ATATATAT
86167148 ACATATAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 2 0.06
21 22 0.63
23 4 0.11
24 5 0.14
25 2 0.06
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (21 bp):
TAAAAATACACATATATATAT
Found at i:86167137 original size:23 final size:20
Alignment explanation
Indices: 86167091--86167145 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 20
86167081 ATAAATATAC
86167091 ACATATATATATTAAAAAAAT
1 ACATA-ATATATTAAAAAAAT
*
86167112 ACATAATGATATTAAAAATACGT
1 ACATAAT-ATATTAAAAA-A-AT
86167135 ACATAATATAT
1 ACATAATATAT
86167146 ATACATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.07
21 15 0.50
22 5 0.17
23 8 0.27
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (20 bp):
ACATAATATATTAAAAAAAT
Found at i:86167206 original size:25 final size:26
Alignment explanation
Indices: 86167155--86167227 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
86167145 TATACATATA
* * *
86167155 ATATAGTTATTAAAAAAATACATACAAT
1 ATATAGGTATTAAAAATATGC--ACAAT
*
86167183 ATATA-GTATTAAGAATATGCACAAT
1 ATATAGGTATTAAAAATATGCACAAT
86167208 ATATATGGTATTAAAAATAT
1 ATATA-GGTATTAAAAATAT
86167228 AGTATTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
25 10 0.26
27 23 0.61
28 5 0.13
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.34
Consensus pattern (26 bp):
ATATAGGTATTAAAAATATGCACAAT
Found at i:86167492 original size:27 final size:27
Alignment explanation
Indices: 86167462--86167524 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
86167452 TACTATGTAC
86167462 AAAAATATATACA-TA-TACATATATAAT
1 AAAAATATATACACTATTA-ATA-ATAAT
*
86167489 AAAAAAATATACACTATTAATAATAAT
1 AAAAATATATACACTATTAATAATAAT
*
86167516 AATAATATA
1 AAAAATATA
86167525 GTAATAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 24 0.77
28 5 0.16
29 2 0.06
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (27 bp):
AAAAATATATACACTATTAATAATAAT
Found at i:86167654 original size:138 final size:142
Alignment explanation
Indices: 86167410--86167672 Score: 376
Period size: 138 Copynumber: 1.9 Consensus size: 142
86167400 ATACGTAAAC
*
86167410 ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAATACTATGTACAAAAATATATACA
1 ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAAAACTATGTA-AAAAATATATA-A
* * *
86167475 TATACATATATAATAAAAAAATATACACTATTAATAATAATAATAATA-TAGTAATAATATTAAT
64 TATACATATATAATAAAAAAATACACAATATTAATAATAATAATAATACTAGAAATAATATTAAT
86167539 AACAAAAAGCAAAT
129 AACAAAAAGCAAAT
* * *
86167553 ATAATGTAATAAATATATTAAAATAAAGTAATTA-AAAATAAAACTATGT-ATAAATATAT-ATA
1 ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAAAACTATGTAAAAAATATATAATA
*
86167615 TACATATATAAT-AAAACATACACTAATATT-ATATATAATAATAATACTAGAAATAATA
66 TACATATATAATAAAAAAATACAC-AATATTAATA-ATAATAATAATACTAGAAATAATA
86167673 ATAACTAGTA
Statistics
Matches: 109, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
137 12 0.11
138 32 0.29
139 10 0.09
140 9 0.08
142 14 0.13
143 32 0.29
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (142 bp):
ATAATATAATAAAAATATTAAAATAAAGTAATTAGAAAATAAAACTATGTAAAAAATATATAATA
TACATATATAATAAAAAAATACACAATATTAATAATAATAATAATACTAGAAATAATATTAATAA
CAAAAAGCAAAT
Found at i:86167657 original size:3 final size:3
Alignment explanation
Indices: 86167649--86167824 Score: 117
Period size: 3 Copynumber: 58.0 Consensus size: 3
86167639 AATATTATAT
* *
86167649 ATA ATA ATA ATA CTA GA-A ATA ATA ATA ACTA GTA ATA ATA ATA ATTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA
* * * * * *
86167696 AAA ATA ATA ATA ATA ATA ATA A-A AGGA ATA AAA ACA ATG TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * * * *
86167741 ACA AGA ATA GTA ATA ATA GTA ATA ATA ACA ATA AT- ATAA AGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * *
86167786 ATA TTA ATA ATA TTA GA-A ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
86167825 TTTATTAAAA
Statistics
Matches: 132, Mismatches: 31, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
2 6 0.05
3 118 0.89
4 8 0.06
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:86167685 original size:16 final size:16
Alignment explanation
Indices: 86167649--86167717 Score: 81
Period size: 16 Copynumber: 4.4 Consensus size: 16
86167639 AATATTATAT
86167649 ATAATAATAAT-ACTA
1 ATAATAATAATAACTA
86167664 GA-AATAATAATAACTA
1 -ATAATAATAATAACTA
* *
86167680 GTAATAATAATAATTA
1 ATAATAATAATAACTA
*
86167696 AAAATAATAATAA-TA
1 ATAATAATAATAACTA
86167711 ATAATAA
1 ATAATAA
86167718 AAGGAATAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
15 17 0.37
16 29 0.63
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (16 bp):
ATAATAATAATAACTA
Found at i:86169334 original size:26 final size:26
Alignment explanation
Indices: 86169305--86169372 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
86169295 TCCTTTCTCA
86169305 AGCCATATAACAGGAAGCTCACAAAG
1 AGCCATATAACAGGAAGCTCACAAAG
*
86169331 AGCCAT-TAATCGGGAAGCTCACAAAG
1 AGCCATATAA-CAGGAAGCTCACAAAG
86169357 AGCC-TAT--CAGGAAGCT
1 AGCCATATAACAGGAAGCT
86169373 TATTCGGGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 8 0.21
25 4 0.11
26 26 0.68
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (26 bp):
AGCCATATAACAGGAAGCTCACAAAG
Found at i:86171901 original size:14 final size:14
Alignment explanation
Indices: 86171882--86171912 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
86171872 TGCTACCATT
86171882 TTACTATTATATTG
1 TTACTATTATATTG
*
86171896 TTACTATTTTATTG
1 TTACTATTATATTG
86171910 TTA
1 TTA
86171913 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (14 bp):
TTACTATTATATTG
Found at i:86172156 original size:12 final size:11
Alignment explanation
Indices: 86172128--86172161 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
86172118 ATATATATTT
86172128 TAAAATT-ATA
1 TAAAATTAATA
86172138 TAAAATTAATA
1 TAAAATTAATA
86172149 TAAAAATTAATA
1 T-AAAATTAATA
86172161 T
1 T
86172162 GGGCGGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.32
11 4 0.18
12 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:86174071 original size:32 final size:33
Alignment explanation
Indices: 86174035--86174117 Score: 109
Period size: 31 Copynumber: 2.6 Consensus size: 33
86174025 AAATCCTTCT
*
86174035 AACCCCAAATACAACCTCTTAACTTTTTT-TCA
1 AACCCCAAACACAACCTCTTAACTTTTTTCTCA
* *
86174067 AACCCTAAACACAACC-C-TAATTTTTTTCTCA
1 AACCCCAAACACAACCTCTTAACTTTTTTCTCA
*
86174098 AAACCCAAACACAACCTCTT
1 AACCCCAAACACAACCTCTT
86174118 CTCCTTCCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
30 9 0.21
31 18 0.42
32 15 0.35
33 1 0.02
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (33 bp):
AACCCCAAACACAACCTCTTAACTTTTTTCTCA
Found at i:86179890 original size:3 final size:3
Alignment explanation
Indices: 86179884--86179912 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
86179874 AGAAGAAGAA
86179884 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
86179913 CGAAGAAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:86180254 original size:34 final size:34
Alignment explanation
Indices: 86180216--86180287 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
86180206 TAAATTTATT
86180216 ATAACATATTTTTCCTATTCACAAGTAAATAAGG
1 ATAACATATTTTTCCTATTCACAAGTAAATAAGG
86180250 ATAACATATTTTTCCTATTCACAAGTAAATAAGG
1 ATAACATATTTTTCCTATTCACAAGTAAATAAGG
86180284 ATAA
1 ATAA
86180288 GTTTTGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (34 bp):
ATAACATATTTTTCCTATTCACAAGTAAATAAGG
Found at i:86182425 original size:23 final size:24
Alignment explanation
Indices: 86182397--86182449 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
86182387 AGAATTTATA
*
86182397 TTAAAAA-GTTACTTAAT-ATATTT
1 TTAAAAATGTTA-TAAATAATATTT
*
86182420 TTAAAAATTTTATAAATAATATTT
1 TTAAAAATGTTATAAATAATATTT
86182444 TTAAAA
1 TTAAAA
86182450 TATTACTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TTAAAAATGTTATAAATAATATTT
Found at i:86192045 original size:9 final size:10
Alignment explanation
Indices: 86192030--86192065 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
86192020 TAAGGATAAC
86192030 AAAAAAAAAG
1 AAAAAAAAAG
86192040 AAAAAAAAAG
1 AAAAAAAAAG
86192050 AAAAGGAAAAAG
1 AAAA--AAAAAG
86192062 AAAA
1 AAAA
86192066 GCCTCGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
12 10 0.42
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:86195507 original size:18 final size:17
Alignment explanation
Indices: 86195476--86195510 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
86195466 ATGTCTAATG
86195476 TGTGATGAATTATGATA
1 TGTGATGAATTATGATA
86195493 TGTGATGATATTATGATA
1 TGTGATGA-ATTATGATA
86195511 GGTAATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TGTGATGAATTATGATA
Done.